Methods for Single-Cell RNA-Seq Data Analysis

bootstrapCluster | Assess cluster stability by bootstrapping |

buildSNNGraph | Build a nearest-neighbor graph |

cleanSizeFactors | Clean size factors |

clusterModularity | Compute the cluster-wise modularity |

combineMarkers | Combine pairwise DE results into a marker list |

combinePValues | Combine p-values |

combineVar | Combine variance decompositions |

computeSpikeFactors | Normalization with spike-in counts |

computeSumFactors | Normalization by deconvolution |

convertTo | Convert to other classes |

correlateGenes | Per-gene correlation statistics |

correlateNull | Build null correlations |

correlatePairs | Test for significant correlations |

cyclone | Cell cycle phase classification |

denoisePCA | Denoise expression with PCA |

DM | Compute the distance-to-median statistic |

doubletCells | Detect doublet cells |

doubletCluster | Detect doublet clusters |

findMarkers | Find marker genes |

fitTrendCV2 | Fit a trend to the CV2 |

fitTrendPoisson | Generate a trend for Poisson noise |

fitTrendVar | Fit a trend to the variances of log-counts |

gene_selection | Gene selection |

getClusteredPCs | Use clusters to choose the number of PCs |

getTopHVGs | Identify HVGs |

getTopMarkers | Get top markers |

modelGeneCV2 | Model the per-gene CV2 |

modelGeneCV2WithSpikes | Model the per-gene CV2 with spike-ins |

modelGeneVar | Model the per-gene variance |

modelGeneVarByPoisson | Model the per-gene variance with spike-ins |

modelGeneVarWithSpikes | Model the per-gene variance with spike-ins |

pairwiseBinom | Perform pairwise binomial tests |

pairwiseTTests | Perform pairwise t-tests |

pairwiseWilcox | Perform pairwise Wilcoxon rank sum tests |

quickCluster | Quick clustering of cells |

quickSubCluster | Quick and dirty subclustering |

sandbag | Cell cycle phase training |

scaledColRanks | Compute scaled column ranks |

Embedding an R snippet on your website

Add the following code to your website.

For more information on customizing the embed code, read Embedding Snippets.